3BEF

Crystal structure of thrombin bound to the extracellular fragment of PAR1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.207

Literature

Macromolecules
Sequence Display for 3BEF

Classification: HYDROLASE

Total Structure Weight: 73193.23

Macromolecule Entities
Molecule Chains Length Organism Details
Prothrombin A, D 46 Homo sapiens EC#: 3.4.21.5 IUBMB
Fragment: THROMBIN LIGHT CHAIN
Gene Name(s): F2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Prothrombin B, E 259 Homo sapiens EC#: 3.4.21.5 IUBMB
Fragment: THROMBIN HEAVY CHAIN
Mutation: D102N
Gene Name(s): F2 Gene View
Proteinase-activated receptor 1 C, F 9 Homo sapiens Fragment: UNP residues 49-57
Gene Name(s): F2R Gene View CF2R PAR1 TR
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

B, E N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.207
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 46.06 α = 76.89
b = 50.34 β = 84.30
c = 85.08 γ = 73.69

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-11-17
  • Released Date: 2008-01-01
  • Deposition author(s): Gandhi, P.S., Bah, A., Chen, Z., Mathews, F.S., Di Cera, E.

Revision History

  • 2011-07-13
    Type: Non-polymer description, Version format compliance